Characterization of red-shifted phycobiliprotein complexes isolated from the chlorophyll f-containing cyanobacterium Halomicronema hongdechloris
ELECTRON MICROSCOPY
Starting Model(s)
| Initial Refinement Model(s) | |||
|---|---|---|---|
| Type | Source | Accession Code | Details |
| experimental model | PDB | 4PO5 | |
| Sample |
|---|
| Red-shifted phycobilisomes from Halomicronema hongdechloris |
| Sample Components |
| APC phycobilisome complex |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Staining Type | NEGATIVE |
| Staining Material | uranyl acetate |
| Staining Details | |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 420 |
| Reported Resolution (Å) | 26 |
| Resolution Method | FSC 0.33 CUT-OFF |
| Other Details | (Single particle details: Semiautomatic selection using e2boxer.py swarm function) (Single particle--Applied symmetry: D3) |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | D3 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (4PO5, 4PO5) | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | RIGID BODY FIT | ||||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | REFINEMENT PROTOCOL--rigid body DETAILS--Two trimers were fitted to each end of the EM map. 99.5% of atoms fit within the map at contour level 0.87 | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GENERIC IMAGE PLATES | ||||||||
| Electron Dose (electrons/Å**2) | |||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | 2015-06-08 |
| Temperature (Kelvin) | |
| Microscope Model | FEI/PHILIPS CM10 |
| Minimum Defocus (nm) | |
| Maximum Defocus (nm) | 3000 |
| Minimum Tilt Angle (degrees) | |
| Maximum Tilt Angle (degrees) | |
| Nominal CS | |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | PHILIPS ROTATION HOLDER |
| Nominal Magnification | 180000 |
| Calibrated Magnification | |
| Source | TUNGSTEN HAIRPIN |
| Acceleration Voltage (kV) | 100 |
| Imaging Details | PHILIPS CM10 |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| MODEL FITTING | UCSF Chimera | |
| RECONSTRUCTION | EMAN | 2 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| Each particle | ||||
